pypi: Scaffold | Projects | Ecosyste.ms: Papers

10.1038/s41598-020-66286-1

A new brilliantly blue-emitting luciferin-luciferase system from Orfelia fultoni and Keroplatinae (Diptera)
Cited by: 16
Author(s): Vadim R. Viviani, Jaqueline R. Silva, Danilo T. Amaral, Vanessa R. Bevilaqua, Fábio Camargo Abdalla, Bruce R. Branchini, Carl Hirschie Johnson
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pbio.3000373

N-terminal β-strand underpins biochemical specialization of an ATG8 isoform
Cited by: 43
Author(s): Erin K. Zess, Cassandra Jensen, Neftaly Cruz-Mireles, Juan Carlos De la Concepcion, Jan Sklenář, Madlen Stephani, Richard Imre, Elisabeth Roitinger, Richard K. Hughes, Khaoula Belhaj, Karl Mechtler, Frank L.H. Menke, Tolga O. Bozkurt, Mark J. Banfield, Sophien Kamoun, Abbas Maqbool, Yasin Dagdas
Software Mentions: 2
Published: about 7 years ago

10.3390/mps3010015

A Fast and Accurate Method to Identify and Quantify Enzymes in Brush-Border Membranes: In Situ Hydrolysis Followed by Nano LC-MS/MS
Cited by: 7
Author(s): Antonio Brun, Melisa E Magallanes, Carlos Martı́nez del Rio, Gregory A. Barrett-Wilt, William H. Karasov, Enrique Caviedes‐Vidal
Software Mentions: 2
Published: over 6 years ago

10.3389/fimmu.2014.00067

Pancreatic Cancer Cells Isolated from Muc1-Null Tumors Favor the Generation of a Mature Less Suppressive MDSC Population
Cited by: 11
Author(s): Amritha Kidiyoor, Jorge Schettini, Dahlia M. Besmer, Stephen L. Rego, Sritama Nath, Jennifer M. Curry, Lopamudra Das Roy, Didier Dréau, Pinku Mukherjee
Software Mentions: 2
Published: almost 13 years ago

10.3389/fcimb.2021.724569

An Innovative Protocol for Metaproteomic Analyses of Microbial Pathogens in Cystic Fibrosis Sputum
Cited by: 6
Author(s): Alexander C. Graf, Johanna Striesow, Jan Pané‐Farré, Thomas Sura, Martina Wurster, Michael Lalk, Dietmar H. Pieper, Dörte Becher, Barbara C. Kahl, Katharina Riedel
Software Mentions: 2
Published: about 5 years ago

10.3389/fimmu.2021.625649

Complement-Opsonized HIV Modulates Pathways Involved in Infection of Cervical Mucosal Tissues: A Transcriptomic and Proteomic Study
Cited by: 2
Author(s): Cecilia Svanberg, Rada Ellegård, Elisa Crisci, Mohammad Khalid, Ninnie Borendal Wodlin, Maria Svenvik, Sofia Nyström, Kenzie Birse, Adam Burgener, Esaki M. Shankar, Marie Larsson
Software Mentions: 2
Published: over 5 years ago

10.1042/BJ20130579

Nogo-A couples with Apg-1 through interaction and co-ordinate expression under hypoxic and oxidative stress
Cited by: 13
Author(s): Florian Kern, Ruslan I. Stanika, Bettina Sarg, Martin Offterdinger, Daniel Heß, Gerald J. Obermair, Herbert Lindner, Christine E. Bandtlow, Ludger Hengst, Rüdiger Schweigreiter
Software Mentions: 2
Published: about 13 years ago

10.3389/fcell.2021.634355

Recovery of Depleted miR-146a in ALS Cortical Astrocytes Reverts Cell Aberrancies and Prevents Paracrine Pathogenicity on Microglia and Motor Neurons
Cited by: 20
Author(s): Marta Barbosa, Cátia Gomes, Catarina Sequeira, Joana Gonçalves-Ribeiro, Carolina Campos Pina, Luís A. R. Carvalho, Rui Moreira, Sandra H. Vaz, Ana Rita Vaz, Dora Brites
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2020.00700

Tubular ER Associates With Diacylglycerol-Rich Structures During Lipid Droplet Consumption
Cited by: 4
Author(s): Suriakarthiga Ganesan, Marjan Tavassoli, Brittney Shabits, Vanina Zaremberg
Software Mentions: 2
Published: about 6 years ago

10.1186/s12934-019-1243-5

Redesigning the Aspergillus nidulans xylanase regulatory pathway to enhance cellulase production with xylose as the carbon and inducer source
Cited by: 4
Author(s): P. Ballmann, Jorge D. Lightfoot, Majon Muller, Stefan Dröge, Rolf A. Prade
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.ppat.1008307

An activator of G protein-coupled receptor and MEK1/2-ERK1/2 signaling inhibits HIV-1 replication by altering viral RNA processing
Cited by: 7
Author(s): Raymond Wong, Ahalya Balachandran, Peter K. Cheung, Ran Cheng, Qun Pan, Peter Stoilov, P. Richard Harrigan, Benjamin J. Blencowe, Donald R. Branch, Alan Cochrane
Software Mentions: 2
Published: over 6 years ago

10.3389/fbioe.2020.00882

Cell Reprogramming With CRISPR/Cas9 Based Transcriptional Regulation Systems
Cited by: 26
Author(s): K. M. Shakirova, Viktoriia Y. Ovchinnikova, Э. Б. Дашинимаев
Software Mentions: 2
Published: about 6 years ago

10.1111/1462-2920.13930

Transcriptome and proteome dynamics in chemostat culture reveal howCampylobacter jejunimodulates metabolism, stress responses and virulence factors upon changes in oxygen availability
Cited by: 28
Author(s): Edward Guccione, John J. Kendall, Andrew Hitchcock, Nitanshu Garg, Michael A. White, Francis Mulholland, Robert K. Poole, David J. Kelly
Software Mentions: 2
Published: about 9 years ago

10.1007/s00401-021-02285-4

Age-associated insolubility of parkin in human midbrain is linked to redox balance and sequestration of reactive dopamine metabolites
Cited by: 26
Author(s): Jacqueline M. Tokarew, Daniel N. El-Kodsi, Nathalie A. Lengacher, Travis K. Fehr, Antoinette Nguyen, Bojan Shutinoski, Brian O’Nuallain, Ming Jin, Jasmine Khan, Andy Cheuk-Him Ng, Juan Li, Quan Jiang, Mei Zhang, Liqun Wang, Rajib Sengupta, Kathryn R. Barber, An Tran, Doo Soon Im, Steve Callaghan, David Park, Stéphanie Zandee, Xiajun Dong, Clemens R. Scherzer, Alexandre Prat, Eve C. Tsai, Masashi Takanashi, Nobutaka Hattori, Jennifer A. Chan, Luigi Zecca, Andrew B. West, Arne Holmgren, Lawrence G. Puente, Gary S. Shaw, Gergely Tóth, John Woulfe, Peggy Taylor, Julianna J. Tomlinson, Michael G. Schlossmacher
Software Mentions: 2
Published: over 5 years ago

10.1107/S2059798315022482

Initiating heavy-atom-based phasing by multi-dimensional molecular replacement
Cited by: 3
Author(s): Bjørn Panyella Pedersen, Pontus Gourdon, Xiangyu Liu, Jesper Lykkegaard Karlsen, Poul Nissen
Software Mentions: 2
Published: over 10 years ago

10.15252/embr.201744807

<scp>PAWS</scp> 1 controls Wnt signalling through association with casein kinase 1α
Cited by: 24
Author(s): Polyxeni Bozatzi, Kevin S. Dingwell, Kevin Z. L. Wu, Fay Cooper, Timothy D. Cummins, Luke D. Hutchinson, J. Vogt, Nicola T. Wood, Thomas Macartney, Joby Varghese, Robert Gourlay, David G. Campbell, James C. Smith, Gopal P. Sapkota
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2021.621744

In Vitro Culture Expansion Shifts the Immune Phenotype of Human Adipose-Derived Mesenchymal Stem Cells
Cited by: 25
Author(s): Richard Jeske, Xuegang Yuan, Qin Fu, Bruce A. Bunnell, Timothy M. Logan, Yan Li
Software Mentions: 2
Published: over 5 years ago

10.1098/rsos.181433

Proteomic method to extract, concentrate, digest and enrich peptides from fossils with coloured (humic) substances for mass spectrometry analyses
Cited by: 9
Author(s): Elena R. Schroeter, Kevin Blackburn, Michael B. Goshe, Mary H. Schweitzer
Software Mentions: 2
Published: about 7 years ago

10.1016/j.dib.2015.02.013

Supporting data for comparative proteomic analysis of Listeria monocytogenes ATCC 7644 exposed to a sublethal concentration of nisin
Cited by: 0
Author(s): Kendi Nishino Miyamoto, Karina Mariante Monteiro, Karin da Silva Caumo, Karina Rodrigues Lorenzatto, Henrique Bunselmeyer Ferreira, Adriano Brandelli
Software Mentions: 2
Published: over 11 years ago

10.1186/s12917-014-0251-2

Purification of protein C from canine plasma
Cited by: 1
Author(s): Valerie M. Wong, Dorothee Bienzle, Michael Hayes, Paul Taylor, Richard D. Wood
Software Mentions: 2
Published: almost 12 years ago

10.1016/j.dib.2014.09.006

Data set for the proteomic inventory and quantitative analysis of chicken uterine fluid during eggshell biomineralization
Cited by: 12
Author(s): Pauline Marie, Valérie Labas, Aurélien Brionne, Grégoire Harichaux, Christelle Hennequet-Antier, Yves Nys, Joël Gautron
Software Mentions: 2
Published: almost 12 years ago

10.1038/s42003-019-0426-2

15-deoxy-Δ12,14-Prostaglandin J2 inhibits human soluble epoxide hydrolase by a dual orthosteric and allosteric mechanism
Cited by: 14
Author(s): Giancarlo Abis, Rebecca L. Charles, J. Kopec, Wyatt W. Yue, R. Andrew Atkinson, Tam T. Bui, Steven Lynham, Popova Sn, Yin-Biao Sun, Franca Fraternali, Philip Eaton, Maria R. Conte
Software Mentions: 2
Published: over 7 years ago

10.1038/mt.2016.112

Long Non-coding RNA BGas Regulates the Cystic Fibrosis Transmembrane Conductance Regulator
Cited by: 26
Author(s): Sheena Saayman, Amanda Ackley, Jon Burdach, Matthew Clemson, Dieter C. Gruenert, Kiyoshi Tachikawa, Pad Chivukula, Marc S. Weinberg, Kevin V. Morris
Software Mentions: 2
Published: about 10 years ago

10.1186/s12014-017-9172-y

A proteomic approach to understanding the pathogenesis of idiopathic macular hole formation
Cited by: 10
Author(s): Pingbo Zhang, Mingyan Zhu, Yuming Zhao, Jiang Qian, Craig Dufresne, Randi Turner, Richard D. Semba, Sharon D. Solomon
Software Mentions: 2
Published: almost 9 years ago

10.3390/cells7120269

Proteogenomic Analysis of Burkholderia Species Strains 25 and 46 Isolated from Uraniferous Soils Reveals Multiple Mechanisms to Cope with Uranium Stress
Cited by: 15
Author(s): Meenakshi Agarwal, Ashish Pathak, Rajesh Rathore, Om Prakash, Rakesh Singh, Rajneesh Jaswal, John C. Seaman, Ashvini Chauhan
Software Mentions: 2
Published: almost 8 years ago

10.3390/cells9061423

Chromatin Trapping of Factors Involved in DNA Replication and Repair Underlies Heat-Induced Radio- and Chemosensitization
Cited by: 3
Author(s): Artem V. Luzhin, Bogdan Avanesyan, Artem K. Velichko, Victoria О. Shender, Natalia Ovsyannikova, Georgij Arapidi, Polina V. Shnaider, Nadezhda V. Petrova, Igor I. Kireev, Sergey V. Razin, Omar L. Kantidze
Software Mentions: 2
Published: over 6 years ago

10.1186/1559-0275-11-23

Deciphering the peptidome of urine from ovarian cancer patients and healthy controls
Cited by: 36
Author(s): Christopher R. Smith, Ihor Batruch, Josep Miquel Bauça, Hari Kosanam, Julia Ridley, Marcus Q. Bernardini, Felix Leung, Eleftherios P. Diamandis, Vathany Kulasingam
Software Mentions: 2
Published: over 12 years ago

10.1002/minf.201200030

SARConnect: A Tool to Interrogate the Connectivity Between Proteins, Chemical Structures and Activity Data
Cited by: 9
Author(s): Mats Eriksson, Ingrid Nilsson, Thierry Kogej, Christopher Southan, Martin Johansson, Christian Tyrchan, Sorel Mureşan, Niklas Blomberg, Marcus Bjäreland
Software Mentions: 2
Published: about 14 years ago

10.3390/cells9092070

Dynamic High-Sensitivity Quantitation of Procollagen-I by Endogenous CRISPR-Cas9 NanoLuciferase Tagging
Cited by: 7
Author(s): Ben Calverley, Karl E. Kadler, Adam Pickard
Software Mentions: 2
Published: about 6 years ago

10.1186/s12014-019-9228-2

Rapid detection of colistin resistance protein MCR-1 by LC–MS/MS
Cited by: 11
Author(s): Honghui Wang, Yong Chen, Jeffrey R Strich, Steven K. Drake, Jung Ho Youn, Avi Z. Rosenberg, Marjan Guček, Patrick T. McGann, Anthony F. Suffredini, John P. Dekker
Software Mentions: 2
Published: over 7 years ago

10.1093/database/bav056

Inconsistencies in the red blood cell membrane proteome analysis: generation of a database for research and diagnostic applications
Cited by: 24
Author(s): Tamás Hegedűs, Pururawa Mayank Chaubey, György Várady, Edit Szabó, Hajnalka Sarankó, Lia Hofstetter, Bernd Roschitzki, Bruno Stieger, Balázs Sarkadi
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0218360

Candida utilis yeast as a functional protein source for Atlantic salmon (Salmo salar L.): Local intestinal tissue and plasma proteome responses
Cited by: 14
Author(s): Felipe Eduardo Reveco-Urzua, Mette Hofossæter, Mallikarjuna Rao Kovi, Liv Torunn Mydland, Ragnhild Ånestad, Randi Sørby, Charles McL. Press, Leidy Lagos, Margareth Øverland
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0186840

Chemical crosslinking and mass spectrometry to elucidate the topology of integral membrane proteins
Cited by: 11
Author(s): Mykhaylo O. Debelyy, Patrice Waridel, Manfredo Quadroni, Roger Schneiter, Andreas Conzelmann
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0228134

Proteomic profiling of proteins in the dorsal horn of the spinal cord in dairy cows with chronic lameness
Cited by: 2
Author(s): Daniel Herzberg, Pablo Strobel, Heine Yacob Müller, Constanza Meneses, Mads Werner, Hedie Bustamante
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0134014

Flux Balance Analysis with Objective Function Defined by Proteomics Data—Metabolism of Mycobacterium tuberculosis Exposed to Mefloquine
Cited by: 21
Author(s): Daniel Montezano, Laura Meek, Rashmi Gupta, Luiz E. Bermudez, J.C.M. Bermudez
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0185125

Biochemical and biomechanical properties of the pacemaking sinoatrial node extracellular matrix are distinct from contractile left ventricular matrix
Cited by: 19
Author(s): Jessica M. Gluck, Anthony W. Herren, Sergey Yechikov, Hillary K.J. Kao, Ambereen Khan, Brett S. Phinney, Nipavan Chiamvimonvat, James W. Chan, Deborah K. Lieu
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0150239

Identification of Interactions in the NMD Complex Using Proximity-Dependent Biotinylation (BioID)
Cited by: 30
Author(s): Christoph Schweingruber, Paolo Soffientini, Marc‐David Ruepp, Ángela Bachi, Oliver Mühlemann
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0028949

Proteome Changes Driven by Phosphorus Deficiency and Recovery in the Brown Tide-Forming Alga Aureococcus anophagefferens
Cited by: 60
Author(s): Louie L. Wurch, Erin M. Bertrand, Mak A. Saito, Benjamin A. S. Van Mooy, Sonya T. Dyhrman
Software Mentions: 2
Published: almost 15 years ago

10.1371/journal.pone.0018724

Temperature-Induced Protein Secretion by Leishmania mexicana Modulates Macrophage Signalling and Function
Cited by: 84
Author(s): Kasra Hassani, Elisabeth Antoniak, Armando Jardim, Martin Olivier
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.pone.0040695

Integrated Metabolo-Proteomic Approach to Decipher the Mechanisms by Which Wheat QTL (Fhb1) Contributes to Resistance against Fusarium graminearum
Cited by: 212
Author(s): Raghavendra Gunnaiah, Ajjamada C. Kushalappa, Raj Duggavathi, S. L. Fox, Daryl J. Somers
Software Mentions: 2
Published: over 14 years ago

10.1371/journal.pone.0121055

Scalable Production in Human Cells and Biochemical Characterization of Full-Length Normal and Mutant Huntingtin
Cited by: 36
Author(s): Bin Huang, Tanja Lucas, Claudia Kueppers, Xiaomin Dong, Maike Krause, Alexander Bepperling, Johannes Büchner, Hans Voshol, Andreas Weiss, Bertran Gerrits, Stefan Kochanek
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0208352

Characterization of longitudinal canal tissue in the acorn barnacle Amphibalanus amphitrite
Cited by: 8
Author(s): Chenyue Wang, Janna N. Schultzhaus, Chris R. Taitt, Dagmar H. Leary, Lisa C. Shriver‐Lake, Daniel A. Snellings, Samantha L Sturiale, Stella H. North, Beatriz Orihuela, Daniel Rittschof, Kathryn J. Wahl, Christopher M. Spillmann
Software Mentions: 2
Published: almost 8 years ago

10.1111/acel.12780

Oxidation resistance 1 is a novel senolytic target
Cited by: 81
Author(s): Xin Zhang, Suping Zhang, Xingui Liu, Yingying Wang, Jianhui Chang, Xuan Zhang, Samuel G. Mackintosh, Alan J. Tackett, Yonghan He, Dongwen Lv, Rémi-Martin Laberge, Judith Campisi, Jianrong Wang, Guangrong Zheng, Daohong Zhou
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0004501

Two Chromogranin A-Derived Peptides Induce Calcium Entry in Human Neutrophils by Calmodulin-Regulated Calcium Independent Phospholipase A2
Cited by: 87
Author(s): Dandan Zhang, Peiman Shooshtarizadeh, Benoît‐Joseph Laventie, Didier Colin, Jean-François Chich, Jasmina Vidić, Jean de Barry, Sylvette Chasserot‐Golaz, François Delalande, Alain Van Dorsselaer, Francis Schneider, Karen B. Helle, Dominique Aunis, Gilles Prévost, Marie‐Hélène Metz‐Boutigue
Software Mentions: 2
Published: over 17 years ago

10.1371/journal.pone.0100263

Insight into PreImplantation Factor (PIF*) Mechanism for Embryo Protection and Development: Target Oxidative Stress and Protein Misfolding (PDI and HSP) through Essential RIPK Binding Site
Cited by: 30
Author(s): Eytan R. Barnea, David M. Lubman, Yan Hui Liu, V. Absalon-Medina, Soren Hayrabedyan, Krassimira Todorova, R.O. Gilbert, Joy Guingab, Timothy J. Barder
Software Mentions: 2
Published: over 12 years ago

10.1016/j.celrep.2021.109230

Integrin intra-heterodimer affinity inversely correlates with integrin activatability
Cited by: 11
Author(s): Guangyu Sun, Emilie Guillon, Scott A. Holley
Software Mentions: 2
Published: over 5 years ago

10.1242/dev.185421

Ykt6-dependent endosomal recycling is required for Wnt secretion in the Drosophila wing epithelium
Cited by: 13
Author(s): Karen Linnemannstöns, Leonie Witte, Pradhipa Karuna, Jeanette Clarissa Kittel, Adi Danieli, Denise Madeddu, Lena Nitsch, Mona Honemann‐Capito, Ferdi Grawe, Andreas Wodarz, Julia Christina Gross
Software Mentions: 2
Published: almost 7 years ago

10.1074/mcp.RA118.001193

Proteomics Analysis of Extracellular Matrix Remodeling During Zebrafish Heart Regeneration
Cited by: 45
Author(s): Anna Garcia-Puig, José Luis Mosquera, Senda Jiménez‐Delgado, Cristina García-Pastor, Ignasi Jorba, Daniel Navajas, Françesc Canals, Ángel Raya
Software Mentions: 2
Published: about 7 years ago

10.1074/mcp.M115.054502

Proteomic Analysis of Rhizoctonia solani Identifies Infection-specific, Redox Associated Proteins and Insight into Adaptation to Different Plant Hosts
Cited by: 33
Author(s): Jonathan P. Anderson, James K. Hane, Thomas Stoll, Nicholas Pain, Marcus L. Hastie, Parwinder Kaur, Christine Hoogland, Jeffrey J. Gorman, Karam B. Singh
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0015004

Aptamer-Based Multiplexed Proteomic Technology for Biomarker Discovery
Cited by: 1,153
Author(s): Larry Gold, Deborah Ayers, Jennifer Bertino, C. Bock, Ashley Bock, Edward N. Brody, Jeff Carter, Andrew B. Dalby, Bruce E. Eaton, Tim Fitzwater, Dylan Flather, Ashley Forbes, Trudi Foreman, Cate Fowler, Bharat Gawande, Meredith Goss, Magda Gunn, Shashi Gupta, Dennis Halladay, Jim Heil, Joe Heilig, Brian J. Hicke, Gregory M. Husar, Nebojša Janjić, Thale C. Jarvis, Susan D. Jennings, Evaldas Katilius, Tracy R. Keeney, Nancy Kim, Tad H. Koch, Stephan Kräemer, Luke Kroiss, Ngan Le, Daniel M. Levine, Wes Lindsey, Bridget Lollo, Wes Mayfield, Mike Mehan, Robert Mehler, Sally K. Nelson, Michele Nelson, Dan Nieuwlandt, Malti Nikrad, Urs A. Ochsner, Rachel Ostroff, Matt Otis, Thomas S. Parker, Steve Pietrasiewicz, Daniel I. Resnicow, John C. Rohloff, Glenn M. Sanders, Sarah Sattin, Daniel J. Schneider, Britta Swebilius Singer, Martin Stanton, Alana Sterkel, A. Keith Stewart, Suzanne Stratford, Jonathan D. Vaught, Mike Vrkljan, Jeffrey J. Walker, Mike Watrobka, Sheela Waugh, Allison Weiss, Sheri K. Wilcox, Alexey D. Wolfson, Steven K. Wolk, Chi Zhang, Dom Zichi
Software Mentions: 2
Published: almost 16 years ago

10.1371/journal.pone.0190836

Comparison of genomes and proteomes of four whole genome-sequenced Campylobacter jejuni from different phylogenetic backgrounds
Cited by: 7
Author(s): Clifford G. Clark, Chih-Yu Chen, Chrystal Berry, Matthew Walker, Stuart McCorrister, Patrick Chong, Garrett Westmacott
Software Mentions: 2
Published: almost 9 years ago

10.1074/mcp.M117.068429

The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics
Cited by: 56
Author(s): Juan Antonio Vizcaíno, Gerhard Mayer, Simon Perkins, Harald Barsnes, Marc Vaudel, Yasset Perez‐Riverol, Tobias Ternent, Julian Uszkoreit, Martin Eisenacher, Lutz Fischer, Juri Rappsilber, Eugen Netz, Mathias Walzer, Oliver Kohlbacher, Alexander Leitner, Robert J. Chalkley, Fawaz Ghali, Salvador Martínez‐Bartolomé, Eric W. Deutsch, Andrew R. Jones
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0012671

Proteome-Wide Search Reveals Unexpected RNA-Binding Proteins in Saccharomyces cerevisiae
Cited by: 150
Author(s): Nikoleta G. Tsvetanova, Daniel M. Klass, Julia Salzman, Patrick O. Brown
Software Mentions: 2
Published: about 16 years ago

10.1371/journal.pone.0156543

A Large and Phylogenetically Diverse Class of Type 1 Opsins Lacking a Canonical Retinal Binding Site
Cited by: 11
Author(s): Erin Becker, Andrew I. Yao, Phillip Seitzer, Tobias Kind, Ting Wang, Rich Eigenheer, Katie S. Y. Shao, Vladimir Yarov‐Yarovoy, Marc T. Facciotti
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0124473

Comprehensive Evaluation of Toxoplasma gondii VEG and Neospora caninum LIV Genomes with Tachyzoite Stage Transcriptome and Proteome Defines Novel Transcript Features
Cited by: 29
Author(s): Abhinay Ramaprasad, Tobias Mourier, Raeece Naeem, Tareq B. Malas, Ehab M. Moussa, Aswini K. Panigrahi, Sarah J. Vermont, Thomas D. Otto, Jonathan M. Wastling, Arnab Pain
Software Mentions: 2
Published: over 11 years ago

10.1074/mcp.M113.028589

Heterogeneity in Neutrophil Microparticles Reveals Distinct Proteome and Functional Properties
Cited by: 162
Author(s): Jesmond Dalli, Trinidad Montero‐Melendez, Lucy V. Norling, Xiaoke Yin, C. J. Hinds, Dorian O. Haskard, Manuel Mayr, Mauro Perretti
Software Mentions: 2
Published: about 13 years ago

10.1371/journal.pone.0064621

Transcriptome and Proteome Data Reveal Candidate Genes for Pollinator Attraction in Sexually Deceptive Orchids
Cited by: 44
Author(s): Khalid E. M. Sedeek, Weihong Qi, Monica A. Schauer, Alok Gupta, Lucy Poveda, Shuqing Xu, Zhong‐Jian Liu, Ueli Grossniklaus, Florian P. Schiestl, Philipp M. Schlüter
Software Mentions: 2
Published: over 13 years ago

10.1186/s12864-016-3408-5

Shotgun proteomics of the barley seed proteome
Cited by: 51
Author(s): Ramamurthy Mahalingam
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pone.0027811

Radiation–Induced Signaling Results in Mitochondrial Impairment in Mouse Heart at 4 Weeks after Exposure to X-Rays
Cited by: 130
Author(s): Žarko Barjaktarović, Dominik Schmaltz, Alena Shyla, Omid Azimzadeh, Sabine Schulz, Julia Haagen, Wolfgang Dörr, Hakan Sarioglu, Alexander Schäfer, Michael J. Atkinson, Hans Zischka, Soile Tapio
Software Mentions: 2
Published: almost 15 years ago

10.1371/journal.pone.0026542

A Metaproteomic Approach to Study Human-Microbial Ecosystems at the Mucosal Luminal Interface
Cited by: 73
Author(s): Xiaoxiao Li, James F. LeBlanc, Amy Truong, Ravi Vuthoori, Sharon S. Chen, Jonathan L. Lustgarten, Bennett E. Roth, Jeff Allard, Andrew Ippoliti, Laura L. Presley, James Borneman, William L. Bigbee, Vanathi Gopalakrishnan, Thomas G. Graeber, David Elashoff, Jonathan Braun, Lee Goodglick
Software Mentions: 2
Published: almost 15 years ago

10.1371/journal.pone.0018497

A Mighty Small Heart: The Cardiac Proteome of Adult Drosophila melanogaster
Cited by: 81
Author(s): Anthony Cammarato, Christian H. Ahrens, Nakissa N. Alayari, Ermir Qeli, Jasma Rucker, Mary C. Reedy, Christian M. Zmasek, Marjan Guček, Robert N. Cole, Jennifer E. Van Eyk, Rolf Bodmer, Brian O’Rourke, Sanford I. Bernstein, D. Brian Foster
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.pone.0168913

Conserved Lysine Acetylation within the Microtubule-Binding Domain Regulates MAP2/Tau Family Members
Cited by: 16
Author(s): Andrew Hwang, Hanna Trzeciakiewicz, Dave Friedmann, Chao Yuan, Ronen Marmorstein, Virginia M.‐Y. Lee, Todd J. Cohen
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pone.0119523

Experimental Study on Differences in Clivus Chordoma Bone Invasion: An iTRAQ-Based Quantitative Proteomic Analysis
Cited by: 16
Author(s): Zhen Wu, Liang Wang, Zhengguang Guo, Ke Wang, Yang Zhang, Kaibing Tian, Junting Zhang, Wei Sun, Chunmei Yu
Software Mentions: 2
Published: over 11 years ago

10.1186/s12864-020-07326-y

Complementary transcriptomic and proteomic analyses reveal the cellular and molecular processes that drive growth and development of Fasciola hepatica in the host liver
Cited by: 25
Author(s): Krystyna Cwiklinski, Mark W. Robinson, Sheila Donnelly, John P. Dalton
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0021991

A Novel Role of Protein Tyrosine Kinase2 in Mediating Chloride Secretion in Human Airway Epithelial Cells
Cited by: 7
Author(s): Lianchun Liang, Owen M. Woodward, Zhaohui Chen, Robert J. Cotter, William B. Guggino
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.pone.0136362

Proteins with Intrinsically Disordered Domains Are Preferentially Recruited to Polyglutamine Aggregates
Cited by: 30
Author(s): Maggie P. Wear, Dmitry Kryndushkin, Robert N. O’Meally, Jason L. Sonnenberg, Robert N. Cole, Frank Shewmaker
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0007050

Barrier-to-Autointegration Factor Proteome Reveals Chromatin-Regulatory Partners
Cited by: 93
Author(s): Rocío Montes de, Christopher J. Shoemaker, Marjan Guček, Robert N. Cole, Katherine L. Wilson
Software Mentions: 2
Published: about 17 years ago

10.1074/mcp.RA118.000973

Development of a Gill Assay Library for Ecological Proteomics of Threespine Sticklebacks (Gasterosteus aculeatus)
Cited by: 22
Author(s): Johnathon Li, Bryn Levitan, Silvia Gómez‐Jiménez, Dietmar Kültz
Software Mentions: 2
Published: almost 8 years ago

10.1186/1471-2164-10-348

Proteomic-based identification of maternal proteins in mature mouse oocytes
Cited by: 66
Author(s): Ping Zhang, Xiaojian Ni, Yingying Guo, Xuejiang Guo, Yufeng Wang, Zuomin Zhou, Ran Huo, Jiahao Sha
Software Mentions: 2
Published: about 17 years ago

10.1371/journal.pone.0094166

Biochemical Properties and Atomic Resolution Structure of a Proteolytically Processed β-Mannanase from Cellulolytic Streptomyces sp. SirexAA-E
Cited by: 16
Author(s): Taichi E. Takasuka, Justin Acheson, C.M. Bianchetti, Ben M. Prom, Lai F. Bergeman, Adam J. Book, Cameron R. Currie, Brian G. Fox
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0186461

Software-aided approach to investigate peptide structure and metabolic susceptibility of amide bonds in peptide drugs based on high resolution mass spectrometry
Cited by: 14
Author(s): Tatiana Radchenko, Andreas Brink, Yves Siegrist, Christopher J. Kochansky, Alison Bateman, Fabien Fontaine, Luca Morettoni, Ismael Zamora
Software Mentions: 2
Published: almost 9 years ago

10.1002/1878-0261.12152

Dabrafenib inhibits the growth of BRAF‐WT cancers through CDK16 and NEK9 inhibition
Cited by: 26
Author(s): Manali S. Phadke, Lily Rix, Inna Smalley, Annamarie T. Bryant, Yunting Luo, Harshani R. Lawrence, Braydon Schaible, Yian Ann Chen, Uwe Rix, Keiran S.M. Smalley
Software Mentions: 2
Published: almost 9 years ago

10.1007/s00253-021-11129-w

Assembly of a Rieske non-heme iron oxygenase multicomponent system from Phenylobacterium immobile E DSM 1986 enables pyrazon cis-dihydroxylation in E. coli
Cited by: 4
Author(s): Andreas Hunold, Wendy Escobedo‐Hinojosa, Elsa Potoudis, Daniela Resende, Theresa Farr, Per‐Olof Syrén, Bernhard Hauer
Software Mentions: 2
Published: over 5 years ago

10.1074/mcp.M115.054064

Identification of Evening Complex Associated Proteins in Arabidopsis by Affinity Purification and Mass Spectrometry
Cited by: 148
Author(s): He Huang, Sophie Alvarez, Rebecca K. Bindbeutel, Zhouxin Shen, Michael J. Naldrett, Bradley S. Evans, Steven P. Briggs, Leslie M. Hicks, Steve A. Kay, Dmitri A. Nusinow
Software Mentions: 2
Published: almost 11 years ago

10.3390/cells8020192

In-Depth Proteome Analysis Highlights HepaRG Cells as a Versatile Cell System Surrogate for Primary Human Hepatocytes
Cited by: 35
Author(s): Georg Tascher, Audrey Burban, Sandrine Camus, Marine Plumel, Stéphanie Chanon, Rémy Le Guével, В. П. Шевченко, Alain Van Dorsselaer, Étienne Lefai, Christiane Guguen‐Guillouzo, Fabrice Bertile
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0040949

Warburg Effect’s Manifestation in Aggressive Pheochromocytomas and Paragangliomas: Insights from a Mouse Cell Model Applied to Human Tumor Tissue
Cited by: 32
Author(s): Stephanie Fliedner, Nina Kaludercic, Xiao Jiang, Hana Hansı́ková, Zuzana Hájková, Jana Sládková, Andrea Limpuangthip, Peter S. Backlund, Robert Wesley, Lucia Martiniova, Ivana Jochmanová, Nikoletta Lendvai, J Breza, Alfred L. Yergey, Nazareno Paolocci, Arthur S. Tischler, Jiřı́ Zeman, Forbes D. Porter, Hendrik Lehnert, Karel Pacák
Software Mentions: 2
Published: about 14 years ago

10.1371/journal.pone.0250296

Sodium butyrate modulates chicken macrophage proteins essential for Salmonella Enteritidis invasion
Cited by: 3
Author(s): Anamika Gupta, Mohit Bansal, Rohana Liyanage, Abhinav Upadhyay, N. C. Rath, Annie Donoghue, Xiaolun Sun
Software Mentions: 2
Published: over 5 years ago

10.1016/j.molcel.2012.05.004

A Death Effector Domain Chain DISC Model Reveals a Crucial Role for Caspase-8 Chain Assembly in Mediating Apoptotic Cell Death
Cited by: 267
Author(s): Laura S. Dickens, Robert S. Boyd, Rebekah Jukes-Jones, Michelle A. Hughes, Gemma L. Robinson, Louise Fairall, John W. R. Schwabe, Kelvin Cain, Marion MacFarlane
Software Mentions: 2
Published: over 14 years ago

10.1038/s42003-020-1091-1

Genomic insights of body plan transitions from bilateral to pentameral symmetry in Echinoderms
Cited by: 25
Author(s): Yongxin Li, Akihito Omori, Rachel L. Flores, Sheri Satterfield, Christine Nguyen, Tomomi Ota, Toko Tsurugaya, Tetsuro Ikuta, Kazuho Ikeo, Mani Kikuchi, Jason Cheok Kuan Leong, Adrian Reich, Hao Meng, Wenting Wan, Yang Dong, Yaondong Ren, Si Zhang, Tao Zeng, Masahiro Uesaka, Yui Uchida, Xueyan Li, Tomoko Shibata, Takahiro Bino, Kota Ogawa, Shuji Shigenobu, Mariko Kondo, Fayou Wang, Luonan Chen, Gary M. Wessel, Hidetoshi Saiga, R. Andrew Cameron, Brian T. Livingston, Cynthia A. Bradham, Wen Wang, Naoki Irie
Software Mentions: 2
Published: over 6 years ago

10.3390/antiox8120605

The Disulfide Stress Response and Protein S-thioallylation Caused by Allicin and Diallyl Polysulfanes in Bacillus subtilis as Revealed by Transcriptomics and Proteomics
Cited by: 21
Author(s): Bui Khanh, Nguyen Thi Thu Huyen, Vu Van Loi, Martin C. H. Gruhlke, Marc Schaffer, Ulrike Mäder, Sandra Maaß, Dörte Becher, Jörg Bernhardt, Miriam Arbach, Chris J. Hamilton, Alan Slusarenko, Haike Antelmann
Software Mentions: 2
Published: almost 7 years ago

10.1038/s42003-021-02214-x

Placental secretome characterization identifies candidates for pregnancy complications
Cited by: 16
Author(s): Tina Napso, Xiaohui Zhao, Marta Ibañez-Lligoña, Ionel Sandovici, Richard G. Kay, Amy L. George, Fiona M. Gribble, Frank Reimann, Claire L Meek, Russell S. Hamilton, Amanda N. Sferruzzi‐Perri
Software Mentions: 2
Published: over 5 years ago

10.1007/s00401-018-1806-2

T lymphocytes facilitate brain metastasis of breast cancer by inducing Guanylate-Binding Protein 1 expression
Cited by: 52
Author(s): Dana A. M. Mustafa, Rute M S M Pedrosa, Marcel Smid, Marcel van der Weiden, Vanja de Weerd, Alex L. Nigg, Cor Berrevoets, Lona Zeneyedpour, Neibla Priego, Manuel Valiente, Theo M. Luider, Reno Debets, John W.M. Martens, John A. Foekens, Anieta M. Sieuwerts, Johan M. Kros
Software Mentions: 2
Published: over 8 years ago

10.1016/j.dib.2020.106064

Tandem mass tagged dataset used to characterize muscle-specific proteome changes in beef during early postmortem period
Cited by: 2
Author(s): Chaoyu Zhai, B. A. Djimsa, Kitty Brown, Jessica E. Prenni, D. R. Woerner, K. E. Belk, Mahesh N. Nair
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0075446

A Purine Analog Synergizes with Chloroquine (CQ) by Targeting Plasmodium falciparum Hsp90 (PfHsp90)
Cited by: 23
Author(s): Dea Shahinas, Asongna Folefoc, Tony Taldone, Gabriela Chiosis, Ian Crandall, Dylan R. Pillai
Software Mentions: 2
Published: about 13 years ago

10.1371/journal.pone.0037034

Comparative Proteomic Analysis of Aedes aegypti Larval Midgut after Intoxication with Cry11Aa Toxin from Bacillus thuringiensis
Cited by: 48
Author(s): Angeles Cancino-Rodezno, Luis Lozano, Cris Oppert, Julieta Ivonne Castro, Humberto Lánz-Mendoza, Sergio Encarnación, Amy Evans, Sarjeet S. Gill, Mário Soberón, Juan Luís Jurat-Fuentes, Alejandra Bravo
Software Mentions: 2
Published: over 14 years ago

10.1371/journal.pntd.0008626

Fasciola hepatica Extracellular Vesicles isolated from excretory-secretory products using a gravity flow method modulate dendritic cell phenotype and activity
Cited by: 29
Author(s): A. Murphy, Krystyna Cwiklinski, Richard Lalor, Barry O’Connell, Mark W. Robinson, Jared Q. Gerlach, Lokesh Joshi, Michelle Kilcoyne, John P. Dalton, Sandra M. O’Neill
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pntd.0004069

Release of Small RNA-containing Exosome-like Vesicles from the Human Filarial Parasite Brugia malayi
Cited by: 134
Author(s): Mostafa Zamanian, Lisa M. Fraser, Prince N Agbedanu, Hiruni Harischandra, Andrew R. Moorhead, Tim A. Day, Lyric C. Bartholomay, Michael J. Kimber
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pgen.1008928

Chromosome separation during Drosophila male meiosis I requires separase-mediated cleavage of the homolog conjunction protein UNO
Cited by: 11
Author(s): Joe Weber, Zeynep Kabakci, Soumya Chaurasia, Erich Brunner, Christian F. Lehner
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pntd.0006438

Profiling extracellular vesicle release by the filarial nematode Brugia malayi reveals sex-specific differences in cargo and a sensitivity to ivermectin
Cited by: 85
Author(s): Hiruni Harischandra, Yuan Wang, Hannah J. Loghry, Mostafa Zamanian, Michael J. Kimber
Software Mentions: 2
Published: over 8 years ago

10.1186/s13072-016-0087-z

Pax6 associates with H3K4-specific histone methyltransferases Mll1, Mll2, and Set1a and regulates H3K4 methylation at promoters and enhancers
Cited by: 23
Author(s): Jian Sun, Yilin Zhao, Rebecca McGreal, Yamit Cohen‐Tayar, Shira Rockowitz, Carola Wilczek, Ruth Ashery‐Padan, David Shechter, Deyou Zheng, Aleš Cvekl
Software Mentions: 2
Published: about 10 years ago

10.1002/2211-5463.12997

Cystatin C regulates the cytotoxicity of infection‐induced endothelial‐derived β‐amyloid
Cited by: 2
Author(s): Ron Balczon, K. Adam Morrow, Silas J. Leavesley, C.M. Francis, T. Stevens, Ezinne Agwaramgbo, Christopher Williams, R.P. Stevens, Geri Langham, S.B. Voth, Eugene A. Cioffi, Susan E Weintraub, Troy Stevens
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pgen.1003809

The Highly Prolific Phenotype of Lacaune Sheep Is Associated with an Ectopic Expression of the B4GALNT2 Gene within the Ovary
Cited by: 68
Author(s): Laurence Drouilhet, Camille Mansanet, Julien Sarry, Tabet Kamila, Philippe Bardou, Florent Woloszyn, Jérôme Lluch, Grégoire Harichaux, Catherine Viguié, Danielle Monniaux, Loýs Bodin, Philippe Mulsant, Stéphane Fabre
Software Mentions: 2
Published: about 13 years ago

10.1371/journal.pgen.1009184

Cyclin B3 activates the Anaphase-Promoting Complex/Cyclosome in meiosis and mitosis
Cited by: 10
Author(s): Damien Garrido, Mohammed Bourouh, Éric Bonneil, Pierre Thibault, Andrew Swan, Vincent Archambault
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pgen.1005857

Chromatoid Body Protein TDRD6 Supports Long 3’ UTR Triggered Nonsense Mediated mRNA Decay
Cited by: 42
Author(s): Grigorios Fanourgakis, Mathias Lesche, Müge Akpınar, Andreas Dahl, Rolf Jessberger
Software Mentions: 2
Published: over 10 years ago

10.3389/fcell.2020.616706

Identification of the Myogenetic Oligodeoxynucleotides (myoDNs) That Promote Differentiation of Skeletal Muscle Myoblasts by Targeting Nucleolin
Cited by: 11
Author(s): Sayaka Shinji, Koji Umezawa, Yuma Nihashi, Shun‐ichi Nakamura, Takeshi Shimosato, Tomohide Takaya
Software Mentions: 2
Published: almost 6 years ago

10.1186/1476-4598-12-62

Biochemical and biological characterization of exosomes containing prominin-1/CD133
Cited by: 90
Author(s): Germana Rappa, Javier Mercapide, Fabio Anzanello, R. Marshall Pope, Aurelio Lorico
Software Mentions: 2
Published: over 13 years ago

10.1186/1756-6606-4-28

Impairment of adult hippocampal neural progenitor proliferation by methamphetamine: role for nitrotyrosination
Cited by: 49
Author(s): Arun Venkatesan, Lerna Uzasci, Zhaohui Chen, Labchan Rajbhandari, Carol Anderson, Myoung Hwa Lee, M.A. Bianchet, Robert J. Cotter, Hongjun Song, Avindra Nath
Software Mentions: 2
Published: almost 16 years ago

10.3389/fevo.2019.00085

Alternative Transcription at Venom Genes and Its Role as a Complementary Mechanism for the Generation of Venom Complexity in the Common House Spider
Cited by: 13
Author(s): Robert A. Haney, Taylor Matte, FitzAnthony S. Forsyth, Jessica E. Garb
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pgen.1009412

KCTD19 and its associated protein ZFP541 are independently essential for meiosis in male mice
Cited by: 17
Author(s): Seiya Oura, Takayuki Koyano, Chisato Kodera, Yuki Horisawa-Takada, Makoto Matsuyama, Kei‐ichiro Ishiguro, Masahito Ikawa
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pntd.0007087

Surface molecules of extracellular vesicles secreted by the helminth pathogen Fasciola hepatica direct their internalisation by host cells
Cited by: 75
Author(s): Eduardo de la Torre-Escudero, Jared Q. Gerlach, Adam P.S. Bennett, Krystyna Cwiklinski, Heather Jewhurst, Kathryn M. Huson, Lokesh Joshi, Michelle Kilcoyne, Sandra M. O’Neill, John P. Dalton, Mark W. Robinson
Software Mentions: 2
Published: over 7 years ago

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